Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold229
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 643502
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 5
Found at i:87 original size:21 final size:21
Alignment explanation
Indices: 61--111 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
51 ATAAAGTGTT
61 TTGAAAAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAAAAA
*
82 TTGAAAAAAAAAAAAAACAAA
1 TTGAAAAAAAAAAAAAAAAAA
103 TCT-AAAAAA
1 T-TGAAAAAA
112 CCAGTTTCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (21 bp):
TTGAAAAAAAAAAAAAAAAAA
Found at i:851 original size:55 final size:56
Alignment explanation
Indices: 721--1504 Score: 916
Period size: 55 Copynumber: 14.6 Consensus size: 56
711 CACCTCGTTT
* * *
721 TGGGCTTTGAA-A-GTCGTCCTGC-CTTT-AGGACTG-ACGGTGCCCCCCA-TTGTG
1 TGGGCTTTGAAGAGGT-GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
* *
772 T-GGCTTTGCAA-A-GTGTCCTGCTCTTTGGGGA-AGAAAGGTGCCACCAACTTGTG
1 TGGGCTTTG-AAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
* *
825 TGGGCTTTGAAGAGGTTGT-CTGCTCTTTTTGAGGACTGGGAAA-ATGCCA-CAACTGGTG
1 TGGGCTTTGAAGAGG-TGTCCTGCTC--TTTGAGGACT--GAAAGGTGCCACCAACTTGTG
* *
883 TGGGCTTTGAA-AGG-GTCCTGTTCTTTGAGGACTGGAAA-AT-CCACCAAC-TGTG
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTG
* *
935 TGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGAAA-ATGGCAGCC-ACTTG-G
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA-CCAACTTGTG
*
988 TTGGGC-TTGATGATAGGTGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTG
1 -TGGGCTTTGA--AGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
*
1045 TGGGCTTT-AAGAGGTGTCCTGCTCTTTGGAGG-CTGGAAGGTGCC-CCAACTTGT-
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTT-GAGGACTGAAAGGTGCCACCAACTTGTG
1098 TGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
1153 TGGGCTTTG-AGAGGTGTCCTGCTCTTTGAGGACTG-AA-G-GCCACCAACTTG-G
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
1204 TGGGCTTT-AAGAGGTGTCC-GCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTG
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTG
1259 TGGGCTTTG-A-AGG-GTCCTGCTCTTTGAGGGACTGAAAAGGTGCCACCAACTTGTG
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGA-GGACTG-AAAGGTGCCACCAACTTGTG
*
1314 -GTGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTG
1 TG-GGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
*
1369 TGGGCTTT-AAGAGGTGTCCTGC-CGTTGAGGACTGAAA--TGCCACCAACTTG-G
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
1420 TGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAAC-T-TG
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
1472 TGGGCTTT-AAGAGGTGTCCTGCTC-TTGAGGACT
1 TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACT
1505 AAAACGCGGA
Statistics
Matches: 658, Mismatches: 21, Indels: 108
0.84 0.03 0.14
Matches are distributed among these distances:
50 28 0.04
51 62 0.09
52 109 0.17
53 100 0.15
54 106 0.16
55 142 0.22
56 57 0.09
57 26 0.04
58 19 0.03
59 5 0.01
60 4 0.01
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (56 bp):
TGGGCTTTGAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
Found at i:1301 original size:269 final size:268
Alignment explanation
Indices: 720--1508 Score: 1004
Period size: 269 Copynumber: 2.9 Consensus size: 268
710 CCACCTCGTT
* * * *
720 TTGGGCTT-TGA-AAGTCGTCCTGC-CTTT-AGGACTGACGGTGCCCCCCA-TTGT-GTGGCTTT
1 TTGGGCTTATGATAGGT-GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGGTGGCTTT
**
779 GCAA-A-GTGTCCTGCTCTTTGGGGAAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTT
65 --AAGAGGTGTCCTGCTCTTTGGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGG-T
* *
842 GT-CTGCTCTTTTTGAGGACTGGGAAAATGCCA-CAACTGGTGTGGGCTTTGAAAGG-GTCCTGT
126 GTCCTGCTC--TTTGAGGACT--G-AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGC
**
904 TCTTTGAGGACTGGAAAATCCACCAAC-TGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGA
186 TCTTTGAGGACT-GAAAGGCCACCAACTTG-GTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGA
*
967 CTGAAAATGGCAGCCACTTGG
248 CTGAAAATGCCAGCCACTTGG
988 TTGGGCTTGATGATAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGT-GTGGGCTT
1 TTGGGCTT-ATGATAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGGT-GGCTT
*
1052 TAAGAGGTGTCCTGCTCTTTGGAGGCTGGAAGGTGCC-CCAACTTGT-TGGGCTTTAAGAGGTGT
64 TAAGAGGTGTCCTGCTCTTTGG-GGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGT
*
1115 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTT
128 CCTGCTCTTTGAGGACTGAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTT
1180 GAGGACTG-AAGGCCACCAACTTGGTGGGCTTTAAGAGGTGTCC-GCTCTTTGAGGACTGGAAAG
191 GAGGACTGAAAGGCCACCAACTTGGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT-GAAA-
*
1243 GTGCCA-CCAACTT-G
254 ATGCCAGCC-ACTTGG
1257 TGTGGGCTT-TGA-AGG-GTCCTGCTCTTTGAGGGACTGAAAAGGTGCCACCAACTTGTGGTGGC
1 T-TGGGCTTATGATAGGTGTCCTGCTCTTTGA-GGACTG--AAGGTGCCACCAACTTGTGGTGGC
1319 TTTAAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGT
62 TTTAAGAGGTGTCCTGCTCTTTGGGG-CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGT
*
1384 GTCCTGC-CGTTGAGGACTGAAATGCCACCAACTTG-GTGGGCTTTGAAAGGTGTCCTGCTCTTT
126 GTCCTGCTCTTTGAGGACTGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTT
1447 GAGGACTGAAAGTGCCACCAACTT-GTGGGCTTTAAGAGGTGTCCTGCTC-TTGAGGACT-AAAA
191 GAGGACTGAAAG-GCCACCAACTTGGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAA
1509 CGCGGAAGGA
Statistics
Matches: 472, Mismatches: 18, Indels: 65
0.85 0.03 0.12
Matches are distributed among these distances:
266 17 0.04
267 47 0.10
268 75 0.16
269 111 0.24
270 84 0.18
271 50 0.11
272 31 0.07
273 15 0.03
274 31 0.07
275 11 0.02
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (268 bp):
TTGGGCTTATGATAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGGTGGCTTTA
AGAGGTGTCCTGCTCTTTGGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCT
GCTCTTTGAGGACTGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
CTGAAAGGCCACCAACTTGGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAATGCCAG
CCACTTGG
Found at i:1335 original size:216 final size:216
Alignment explanation
Indices: 784--1508 Score: 937
Period size: 216 Copynumber: 3.4 Consensus size: 216
774 GCTTTGCAAA
* *
784 GTGTCCTGCTCTTTGGGGA-AGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTTGT-CTG
1 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGG-TGTCCTG
* *
847 CTCTTTTTGAGGACTGGGAAAA--TGCCA-CAACTGGTGTGGGCTTTGAA-AGG-GTCCTGTTCT
64 CTC--TTTGAGGACT--GAAAAGGTGCCACCAACTTGTGT-GGCTTT-AAGAGGTGTCCTGCTCT
* *
907 TTGAGGACTGGAAA-AT-CCACCAAC-TGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
123 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACT
*
969 GAAAATGG-CAGCC-ACTTGGTTGGGCTTGATGATAG
187 G-AAA-GGCCA-CCAACTTGG-TGGGCTT--T-AAAG
1004 GTGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCT
1 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCT
*
1068 CTTTGGAGG-CTG-GAAGGTGCC-CCAACTTGT-TGGGCTTTAAGAGGTGTCCTGCTCTTTGAGG
66 CTTT-GAGGACTGAAAAGGTGCCACCAACTTGTGT-GGCTTTAAGAGGTGTCCTGCTCTTTGAGG
1129 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTG-AAGGC
129 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGC
1193 CACCAACTTGGTGGGCTTTAAGAG
194 CACCAACTTGGTGGGCTTTAA-AG
*
1217 GTGTCC-GCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGA-AGG-GTCCTGC
1 GTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGC
*
1279 TCTTTGAGGGACTGAAAAGGTGCCACCAACTTGTGGTGGCTTTAAGAGGTGTCCTGCTCTTTGGG
65 TCTTTGA-GGACTGAAAAGGTGCCACCAACTTGT-GTGGCTTTAAGAGGTGTCCTGCTCTTTGAG
* * *
1344 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGC-CGTTGAGGACTGAAATG
128 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGAAAGG
1408 CCACCAACTTGGTGGGCTTTGAAAG
193 CCACCAACTTGGTGGGCTTT-AAAG
1433 GTGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAAC-T-TGTGGGCTTTAAGAGGTGTCCTGCT
1 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCT
1495 C-TTGAGGACT-AAAA
66 CTTTGAGGACTGAAAA
1509 CGCGGAAGGA
Statistics
Matches: 463, Mismatches: 15, Indels: 62
0.86 0.03 0.11
Matches are distributed among these distances:
211 2 0.00
212 33 0.07
213 32 0.07
214 48 0.10
215 67 0.14
216 148 0.32
217 30 0.06
218 45 0.10
219 12 0.03
220 45 0.10
221 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (216 bp):
GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCT
CTTTGAGGACTGAAAAGGTGCCACCAACTTGTGTGGCTTTAAGAGGTGTCCTGCTCTTTGAGGAC
TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGCCA
CCAACTTGGTGGGCTTTAAAG
Found at i:2462 original size:1 final size:1
Alignment explanation
Indices: 2444--2523 Score: 97
Period size: 1 Copynumber: 80.0 Consensus size: 1
2434 CTTAAGTAGG
* * * * * * *
2444 TTTTTTCTTTTCTCTTTTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2509 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTT
2524 GAAGAGAAGG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.00, C:0.04, G:0.05, T:0.91
Consensus pattern (1 bp):
T
Found at i:14874 original size:52 final size:53
Alignment explanation
Indices: 14814--15102 Score: 197
Period size: 52 Copynumber: 5.5 Consensus size: 53
14804 GGTTTTGAAA
*
14814 ATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAACG
1 ATAAAACCAGGAGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAACG
** *** * * ***
14866 ATAAAACCA-GAGTTGGAGTATCCCCTCGAAAGT--AACGGGGTTGGAGTATCCCCG
1 ATAAAACCAGGAGTTGGAGTAT-CCC-CGATTGTGGAA--AAATTGGTGTTTTAACG
* ** * * *
14920 ATGAAATAACGAGGTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGGAA--
1 ATAAAACCAGGA-GTTGGAGTATCCCCGATTGTGGAAAAATTGGT-GTTTT--AACG
* ** * *
14974 ATAAAATC-GGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCGTTTTGAA-A
1 ATAAAACCAGGAGTTGGAGTATCCCCGATT-GTGGAAAAATTGGTGTTTT-AACG
*
15026 ATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAACG
1 ATAAAACCAGGAGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAACG
15078 ATAAAACC-GGAGTTGGAGTATCCCC
1 ATAAAACCAGGAGTTGGAGTATCCCC
15103 TCGAAAATAA
Statistics
Matches: 179, Mismatches: 40, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
51 12 0.07
52 98 0.55
53 20 0.11
54 33 0.18
55 6 0.03
56 10 0.06
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (53 bp):
ATAAAACCAGGAGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAACG
Found at i:14917 original size:28 final size:27
Alignment explanation
Indices: 14877--14944 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 27
14867 TAAAACCAGA
*
14877 GTTGGAGTATCCCC-TCGAAAGTAACGGG
1 GTTGGAGTATCCCCAT-GAAA-TAACGAG
14905 GTTGGAGTATCCCCGATGAAATAACGAG
1 GTTGGAGTATCCCC-ATGAAATAACGAG
14933 GTTGGAGTATCC
1 GTTGGAGTATCC
14945 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCATGAAATAACGAG
Found at i:15121 original size:28 final size:28
Alignment explanation
Indices: 15076--15157 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
15066 AGTGTTTTAA
* *
15076 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
15103 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
15130 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
15158 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:15174 original size:212 final size:213
Alignment explanation
Indices: 14805--15217 Score: 722
Period size: 212 Copynumber: 1.9 Consensus size: 213
14795 TCGAAAAATG
14805 GTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAACGATAA
1 GTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAACGATAA
*
14870 AACCAGAGTTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGT
66 AACCAGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGT
* *
14935 TGGAGTATCCTCGATTGTGAAAAATTGGTA-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
131 TGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAATATCCCC
14999 GATTAAAGGAAAATTGGC
196 GATTAAAGGAAAATTGGC
15017 GTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAACGATAA
1 GTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAACGATAA
* * *
15082 AACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGT
66 AACCAGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGT
15146 TGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTTTGGAAATAAAATCGGAGTTGGAATATC
131 TGGAGTATCCCCGATTGTGAA-AAATTGGTA--TTTTTTGGAAATAAAATCGGAGTTGGAATATC
*
15211 CTCGATT
193 CCCGATT
15218 GTGGAGAATT
Statistics
Matches: 190, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
211 29 0.15
212 125 0.66
215 36 0.19
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (213 bp):
GTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAACGATAA
AACCAGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGT
TGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAATATCCCC
GATTAAAGGAAAATTGGC
Found at i:17589 original size:13 final size:13
Alignment explanation
Indices: 17571--17596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17561 ACAAAGATCC
17571 ATGTATCGATACA
1 ATGTATCGATACA
17584 ATGTATCGATACA
1 ATGTATCGATACA
17597 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:17592 original size:33 final size:33
Alignment explanation
Indices: 17550--17616 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
17540 AAAATTTCCA
***
17550 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
17583 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
17616 A
1 A
17617 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:17660 original size:19 final size:18
Alignment explanation
Indices: 17636--17703 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
17626 CAGTAGCTAA
17636 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
17655 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
17670 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
17687 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
17704 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:17676 original size:13 final size:13
Alignment explanation
Indices: 17658--17682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17648 ACAATACTTA
17658 TGTATCGATACAT
1 TGTATCGATACAT
17671 TGTATCGATACA
1 TGTATCGATACA
17683 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:17680 original size:32 final size:32
Alignment explanation
Indices: 17639--17701 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
17629 TAGCTAATTA
*
17639 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
17671 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
17702 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:17814 original size:21 final size:21
Alignment explanation
Indices: 17759--17815 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
17749 CATTTGTAGG
*
17759 ATGTATCGATACACTCCACAA
1 ATGTATCGATACATTCCACAA
*
17780 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
17801 ATGTATCGATACATT
1 ATGTATCGATACATT
17816 TAAATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:17826 original size:1 final size:1
Alignment explanation
Indices: 17820--17868 Score: 71
Period size: 1 Copynumber: 49.0 Consensus size: 1
17810 TACATTTAAA
***
17820 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17869 CAAACACTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.04, C:0.02, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:17869 original size:20 final size:20
Alignment explanation
Indices: 17820--17871 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
17810 TACATTTAAA
17820 TTTTTTTTTTTT---TTTTT
1 TTTTTTTTTTTTCAATTTTT
17837 TTTTTTTTTTTTCAATTTTT
1 TTTTTTTTTTTTCAATTTTT
17857 TTTTTTTTTTTTCAA
1 TTTTTTTTTTTTCAA
17872 ACACTTTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.38
20 20 0.62
ACGTcount: A:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (20 bp):
TTTTTTTTTTTTCAATTTTT
Found at i:20323 original size:16 final size:16
Alignment explanation
Indices: 20304--20341 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
20294 ACACGATTTT
20304 TAATTTATTCATGTAA
1 TAATTTATTCATGTAA
*
20320 TAATTTATTTATGTAA
1 TAATTTATTCATGTAA
*
20336 TTATTT
1 TAATTT
20342 TTATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (16 bp):
TAATTTATTCATGTAA
Found at i:21754 original size:46 final size:46
Alignment explanation
Indices: 21687--21778 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
21677 TGCATGTTTT
21687 TCAACCATTACTTAAATAACCTATACTCTAGCTGTTAGGTATAAAA
1 TCAACCATTACTTAAATAACCTATACTCTAGCTGTTAGGTATAAAA
21733 TCAACCATTACTTAAATAACCTATACTCTAGCTGTTAGGTATAAAA
1 TCAACCATTACTTAAATAACCTATACTCTAGCTGTTAGGTATAAAA
21779 CTAATTAACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (46 bp):
TCAACCATTACTTAAATAACCTATACTCTAGCTGTTAGGTATAAAA
Found at i:22304 original size:2 final size:2
Alignment explanation
Indices: 22297--22329 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22287 ATGAAGAAAT
22297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22330 TAAATAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26536 original size:46 final size:46
Alignment explanation
Indices: 26468--26784 Score: 252
Period size: 46 Copynumber: 6.9 Consensus size: 46
26458 ATTTATCTCT
* * *
26468 TTTATTTATTTCTTAATTAATTTAATTTAATTAGATATAAAATTTC
1 TTTAATTATCTCTTAATTAATTTAATTTAATTAGAGATAAAATTTC
* * * * * *
26514 TTTAATTAGCTCTTAATAAATTTAATGTAAATAGAGAT-GAAGTTC
1 TTTAATTATCTCTTAATTAATTTAATTTAATTAGAGATAAAATTTC
* * * ** * *
26559 TTTTATTTATATCTTAATTGATTTAACGTAATTGGAGATAATATTTC
1 -TTTAATTATCTCTTAATTAATTTAATTTAATTAGAGATAAAATTTC
* * * * * *
26606 TTCACTTATATCTTAATTAATTTGATTTAATTAGTGATAAGATTT-
1 TTTAATTATCTCTTAATTAATTTAATTTAATTAGAGATAAAATTTC
* * * * * *
26651 TTTCATTTATTTTTTAATGAATTTAATTTAATTTA-A-A-ATAATTTT
1 TTT-AATTATCTCTTAATTAATTTAATTTAA-TTAGAGATAAAATTTC
*
26696 TTTAATTTATCTCTTAATTAAATTAATTTAATTAGAGATAATAA-TTC
1 TTTAA-TTATCTCTTAATTAATTTAATTTAATTAGAGATAA-AATTTC
* * *
26743 TTTAATTATCTATAAATTAATTTAATTT-ATTAAAGATAAAAT
1 TTTAATTATCTCTTAATTAATTTAATTTAATTAGAGATAAAAT
26785 AGCTAATTAT
Statistics
Matches: 211, Mismatches: 49, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
44 11 0.05
45 43 0.20
46 140 0.66
47 15 0.07
48 2 0.01
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (46 bp):
TTTAATTATCTCTTAATTAATTTAATTTAATTAGAGATAAAATTTC
Found at i:26576 original size:92 final size:91
Alignment explanation
Indices: 26465--26784 Score: 285
Period size: 92 Copynumber: 3.5 Consensus size: 91
26455 GGAATTTATC
* *
26465 TCTTTTATTTATTTCTTAATTAATTTAATTTAATTAGATATAAAATTTCTTTAATTAGCTCTTAA
1 TCTTTTATTTATTTCTTAATTAATTTAATTTAATTAGAGATAAAATTTCTTTAATTATCTCTTAA
* *
26530 TAAATTTAATGTAAATAGAGATGAAGT
66 TAAATTTAATTTAATTAGAGAT-AAGT
* * ** * * * * *
26557 TCTTTTATTTATATCTTAATTGATTTAACGTAATTGGAGATAATATTTCTTCACTTATATCTTAA
1 TCTTTTATTTATTTCTTAATTAATTTAATTTAATTAGAGATAAAATTTCTTTAATTATCTCTTAA
* * *
26622 TTAATTTGATTTAATTAGTGATAAGAT
66 TAAATTTAATTTAATTAGAGATAAG-T
* * * *
26649 T-TTTTCATTTATTTTTTAATGAATTTAATTTAATTTA-A-A-ATAATTTTTTTAATTTATCTCT
1 TCTTTT-ATTTATTTCTTAATTAATTTAATTTAA-TTAGAGATAAAATTTCTTTAA-TTATCTCT
*
26710 TAATTAAA-TTAATTTAATTAGAGATAATAAT
63 TAA-TAAATTTAATTTAATTAGAGAT-A-AGT
* * * * *
26741 TC-TTTAATTATCTATAAATTAATTTAATTT-ATTAAAGATAAAAT
1 TCTTTTATTTATTTCTTAATTAATTTAATTTAATTAGAGATAAAAT
26785 AGCTAATTAT
Statistics
Matches: 178, Mismatches: 39, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
89 3 0.02
90 10 0.06
91 54 0.30
92 108 0.61
93 3 0.02
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (91 bp):
TCTTTTATTTATTTCTTAATTAATTTAATTTAATTAGAGATAAAATTTCTTTAATTATCTCTTAA
TAAATTTAATTTAATTAGAGATAAGT
Found at i:27045 original size:20 final size:19
Alignment explanation
Indices: 26996--27045 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
26986 TTTATGAATA
26996 TAATTAAGT-TTTTTATTTT
1 TAATT-AGTATTTTTATTTT
27015 TAATATA-TATTTATTATTTT
1 TAAT-TAGTATTT-TTATTTT
27035 TAATTAGTATT
1 TAATTAGTATT
27046 AAAAATCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 10 0.37
20 16 0.59
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TAATTAGTATTTTTATTTT
Found at i:27394 original size:2 final size:2
Alignment explanation
Indices: 27387--27411 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27377 AGATTCATAC
27387 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27412 ATTTATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28936 original size:16 final size:16
Alignment explanation
Indices: 28917--28963 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
28907 TTGTAAAATT
28917 TTTTAAAAAATATTAA
1 TTTTAAAAAATATTAA
28933 TTTTAAAAAATA--AA
1 TTTTAAAAAATATTAA
*
28947 TTTAAATAAAATATTAA
1 TTTTAA-AAAATATTAA
28964 GCCTATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 12 0.44
17 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTTAAAAAATATTAA
Found at i:29184 original size:18 final size:18
Alignment explanation
Indices: 29158--29195 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
29148 TTTAAATTTT
29158 AAAATTT-AATTAATAAA
1 AAAATTTAAATTAATAAA
*
29175 AAAATATTAAATTATTAAA
1 AAAAT-TTAAATTAATAAA
29194 AA
1 AA
29196 TTAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 2 0.11
19 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTTAAATTAATAAA
Found at i:29200 original size:15 final size:15
Alignment explanation
Indices: 29182--29232 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
29172 AAAAAAATAT
*
29182 TAAATTATTAAAAAT
1 TAAATTATTAAAAAA
*
29197 TAAATTTTTAAAAAA
1 TAAATTATTAAAAAA
*
29212 TATATT-TTAAAAAA
1 TAAATTATTAAAAAA
29226 TAAATTA
1 TAAATTA
29233 AAAAATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATTATTAAAAAA
Found at i:29219 original size:14 final size:13
Alignment explanation
Indices: 29202--29241 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
29192 AAAATTAAAT
29202 TTTTAAAAAATATA
1 TTTTAAAAAATA-A
29216 TTTTAAAAAATAA
1 TTTTAAAAAATAA
*
29229 -ATTAAAAAATAA
1 TTTTAAAAAATAA
29241 T
1 T
29242 ATACGAGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 12 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:29233 original size:12 final size:13
Alignment explanation
Indices: 29204--29243 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
29194 AATTAAATTT
*
29204 TTAAAAAATATATT
1 TTAAAAAATA-ATA
29218 TTAAAAAATAA-A
1 TTAAAAAATAATA
29230 TTAAAAAATAATA
1 TTAAAAAATAATA
29243 T
1 T
29244 ACGAGATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 3 0.12
14 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAAAAATAATA
Found at i:29242 original size:29 final size:31
Alignment explanation
Indices: 29173--29244 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
29163 TTAATTAATA
* * *
29173 AAAAAATATTAAATTATTAAAAATTAAATTT
1 AAAAAATAATATATTATTAAAAAATAAATTT
**
29204 TTAAAA-AATATATT-TTAAAAAATAAA-TT
1 AAAAAATAATATATTATTAAAAAATAAATTT
29232 AAAAAATAATATA
1 AAAAAATAATATA
29245 CGAGATCTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
28 6 0.18
29 17 0.52
30 6 0.18
31 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAAAATAATATATTATTAAAAAATAAATTT
Found at i:29875 original size:15 final size:15
Alignment explanation
Indices: 29855--29906 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 15
29845 ATATTAACTT
29855 ATAAATAAATTTAAA
1 ATAAATAAATTTAAA
*
29870 ATAAATAATTATTATTAA
1 ATAAATAA--ATT-TAAA
29888 ATAAAATATAATTTAAA
1 AT-AAATA-AATTTAAA
29905 AT
1 AT
29907 TAATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 8 0.27
17 8 0.27
18 8 0.27
19 5 0.17
20 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAATAAATTTAAA
Found at i:29917 original size:32 final size:32
Alignment explanation
Indices: 29857--29919 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
29847 ATTAACTTAT
29857 AAATAAATTTAAAATAAATAATTATTATTAAATA
1 AAATAAATTTAAAAT--ATAATTATTATTAAATA
*
29891 AAATATAATTTAAAAT-TAATTTTTATTAA
1 AAATA-AATTTAAAATATAATTATTATTAA
29920 TAATTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 12 0.44
34 5 0.19
35 10 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
AAATAAATTTAAAATATAATTATTATTAAATA
Found at i:29917 original size:35 final size:36
Alignment explanation
Indices: 29835--29918 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 36
29825 ATTTAAATTG
* *
29835 ATTAATTTGTA-TATTAACTTATAAATAAATTTAAA
1 ATTAATTTTTATTATTAACATATAAATAAATTTAAA
* **
29870 ATAAATAATTATTATTAA-ATA-AAATATAATTTAAA
1 ATTAATTTTTATTATTAACATATAAATA-AATTTAAA
29905 ATTAATTTTTATTA
1 ATTAATTTTTATTA
29919 ATAATTAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
34 5 0.13
35 28 0.72
36 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (36 bp):
ATTAATTTTTATTATTAACATATAAATAAATTTAAA
Found at i:29934 original size:17 final size:17
Alignment explanation
Indices: 29869--29934 Score: 50
Period size: 17 Copynumber: 4.0 Consensus size: 17
29859 ATAAATTTAA
* *
29869 AATAAATAATTATTATT
1 AATAATTAATTAATATT
29886 AAATAA--AATATAAT-TT
1 -AATAATTAAT-TAATATT
**
29902 AA-AATTAATTTTTATT
1 AATAATTAATTAATATT
29918 AATAATTAATTAATATT
1 AATAATTAATTAATATT
29935 TTAAAAAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
14 2 0.05
15 4 0.11
16 12 0.32
17 15 0.39
18 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAATTAATTAATATT
Found at i:31371 original size:20 final size:21
Alignment explanation
Indices: 31343--31382 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
31333 TTGCTTCTCT
*
31343 TAAAAACTAAGAAA-AATAAA
1 TAAAAACTAAAAAATAATAAA
*
31363 TAAATACTAAAAAATAATAA
1 TAAAAACTAAAAAATAATAA
31383 TTCGAGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAAAACTAAAAAATAATAAA
Found at i:31703 original size:23 final size:22
Alignment explanation
Indices: 31673--31718 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
31663 AATATTTTTA
31673 AAAAAATTAAATAATATAAATCG
1 AAAAAATTAAATAAT-TAAATCG
* *
31696 AAAAAATTCAATAATTTAATCG
1 AAAAAATTAAATAATTAAATCG
31718 A
1 A
31719 TCTTGCCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAAAATTAAATAATTAAATCG
Found at i:33013 original size:32 final size:33
Alignment explanation
Indices: 32977--33049 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 33
32967 ATAACATAAA
32977 AATATATAA-CACAAATAT-ATCAAAATTTATAT
1 AATATATAATCACAAATATGAT-AAAATTTATAT
* **
33009 AATATA-AATTATTAATATGATAAAATTTATAT
1 AATATATAATCACAAATATGATAAAATTTATAT
33041 ATATATATA
1 A-ATATATA
33050 TGTAATACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 2 0.06
32 24 0.71
33 7 0.21
34 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (33 bp):
AATATATAATCACAAATATGATAAAATTTATAT
Found at i:33042 original size:16 final size:15
Alignment explanation
Indices: 32991--33045 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
32981 TATAACACAA
32991 ATATATCAAAATTTAT
1 ATATAT-AAAATTTAT
*
33007 ATAATATAAATTATTA-
1 AT-ATATAAAAT-TTAT
33023 ATATGATAAAATTTAT
1 ATAT-ATAAAATTTAT
33039 ATATATA
1 ATATATA
33046 TATATGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 8 0.24
16 18 0.55
17 7 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATATAAAATTTAT
Found at i:33044 original size:18 final size:17
Alignment explanation
Indices: 32991--33047 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
32981 TATAACACAA
32991 ATATATCAAAATTTATAT
1 ATATAT-AAAATTTATAT
33009 A-ATAT-AAA-TTAT-T
1 ATATATAAAATTTATAT
33022 AATATGATAAAATTTATAT
1 -ATAT-ATAAAATTTATAT
33041 ATATATA
1 ATATATA
33048 TATGTAATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 5 0.15
16 2 0.06
17 10 0.30
18 9 0.27
19 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
ATATATAAAATTTATAT
Found at i:35546 original size:2 final size:2
Alignment explanation
Indices: 35539--35569 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35529 AAATAACGTG
35539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35570 GCATTAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39107 original size:21 final size:22
Alignment explanation
Indices: 39068--39112 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
39058 AAATATCTTT
39068 AAATTTGATTTGATAAATTTAA
1 AAATTTGATTTGATAAATTTAA
* *
39090 AAATTT-ATTTTATTAATTTAA
1 AAATTTGATTTGATAAATTTAA
39111 AA
1 AA
39113 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
AAATTTGATTTGATAAATTTAA
Found at i:39178 original size:25 final size:27
Alignment explanation
Indices: 39148--39227 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 27
39138 ATATTTATAA
39148 TTAAATTAAAAATATTTTC-AATT-AT
1 TTAAATTAAAAATATTTTCAAATTAAT
**
39173 TTAAA-TAATAAATA-AATCAAATTAAT
1 TTAAATTAA-AAATATTTTCAAATTAAT
*
39199 TTAAATTATAAAATTTTTATTCAAATTAA
1 TTAAATTA-AAAA-TATT-TTCAAATTAA
39228 ATTCAACACA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
24 5 0.12
25 14 0.33
26 7 0.17
27 5 0.12
28 2 0.05
30 9 0.21
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (27 bp):
TTAAATTAAAAATATTTTCAAATTAAT
Found at i:39182 original size:21 final size:22
Alignment explanation
Indices: 39136--39182 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
39126 ATTTTTATGT
39136 TAATATTTATAATTAAATTAAA
1 TAATATTTATAATTAAATTAAA
*
39158 -AATATTT-TCAATT-ATTTAAA
1 TAATATTTAT-AATTAAATTAAA
39178 TAATA
1 TAATA
39183 AATAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTTATAATTAAATTAAA
Found at i:40180 original size:13 final size:13
Alignment explanation
Indices: 40138--40213 Score: 68
Period size: 12 Copynumber: 6.0 Consensus size: 13
40128 AATATTTTAA
*
40138 TAAAAATTAATATC
1 TAAAAATT-ATATT
* *
40152 TATAAA-TATTTT
1 TAAAAATTATATT
40164 TAAAAATTATATT
1 TAAAAATTATATT
*
40177 TAAAAATGATA-T
1 TAAAAATTATATT
*
40189 TCAAAATTATA-T
1 TAAAAATTATATT
*
40201 TAAAAATAATATT
1 TAAAAATTATATT
40214 CTGAAATATA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
12 28 0.56
13 17 0.34
14 5 0.10
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (13 bp):
TAAAAATTATATT
Found at i:40183 original size:25 final size:25
Alignment explanation
Indices: 40124--40208 Score: 84
Period size: 25 Copynumber: 3.3 Consensus size: 25
40114 AAATTAGCTA
*
40124 TAAAAATATTTTAATAAAAATTAATATC
1 TAAAAATATTTT--TAAAAATT-ATATT
*
40152 TATAAATATTTTTAAAAATTATATT
1 TAAAAATATTTTTAAAAATTATATT
* *
40177 TAAAAATGA-TATTCAAAATTATA-T
1 TAAAAAT-ATTTTTAAAAATTATATT
40201 TAAAAATA
1 TAAAAATA
40209 ATATTCTGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.02
24 8 0.16
25 22 0.43
26 9 0.18
28 11 0.22
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (25 bp):
TAAAAATATTTTTAAAAATTATATT
Found at i:40220 original size:25 final size:25
Alignment explanation
Indices: 40166--40214 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
40156 AATATTTTTA
*
40166 AAAATTATATTTAAAAATGATATTC
1 AAAATTATATTTAAAAATAATATTC
40191 AAAATTATA-TTAAAAATAATATTC
1 AAAATTATATTTAAAAATAATATTC
40215 TGAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
AAAATTATATTTAAAAATAATATTC
Found at i:40244 original size:16 final size:16
Alignment explanation
Indices: 40218--40264 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
40208 AATATTCTGA
*
40218 AATATATAATATATTT
1 AATATAAAATATATTT
* *
40234 TATATAAAATAT-TTA
1 AATATAAAATATATTT
40249 AATATAAAA-ATATTT
1 AATATAAAATATATTT
40264 A
1 A
40265 TGTAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 2 0.08
15 13 0.52
16 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATAAAATATATTT
Found at i:43699 original size:19 final size:18
Alignment explanation
Indices: 43671--43710 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
43661 TCAATTTGTA
*
43671 ATATAATATTTATTGTTAT
1 ATATAATATTTAAT-TTAT
*
43690 ATATATTATTTAATTTAT
1 ATATAATATTTAATTTAT
43708 ATA
1 ATA
43711 ATACAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATAATATTTAATTTAT
Found at i:45307 original size:764 final size:764
Alignment explanation
Indices: 44151--45678 Score: 3011
Period size: 764 Copynumber: 2.0 Consensus size: 764
44141 TAAAGAGTCC
44151 TGGTGGTGTCATCAATATCGATCTCAACTTCTGACAATATTGACCAAATCCAAACATAGTTGGAA
1 TGGTGGTGTCATCAATATCGATCTCAACTTCTGACAATATTGACCAAATCCAAACATAGTTGGAA
44216 TTTGGTCGCTGTCACAACTTTTATCATCATATCAGCAGGATTCTCAGATGTTCGAATCTTCTAAA
66 TTTGGTCGCTGTCACAACTTTTATCATCATATCAGCAGGATTCTCAGATGTTCGAATCTTCTAAA
*
44281 TTTCTACTCCACTTTCATTCAGAATTTCTCATACAAAATGATAACGAACGTCGATGTGCTTCGTT
131 TTTCTACTCCACCTTCATTCAGAATTTCTCATACAAAATGATAACGAACGTCGATGTGCTTCGTT
44346 CTTGCATGGTAAACTAGGTTTTTAGCCAATTGAATAGCACTCTGGCTATCACAATGCACAATAAC
196 CTTGCATGGTAAACTAGGTTTTTAGCCAATTGAATAGCACTCTGGCTATCACAATGCACAATAAC
44411 TTACTTTTGTTCAACTCCAAGTTCACCGAGCAACCCTTGAAGCCATACTGCTTCTTTTACAGCCT
261 TTACTTTTGTTCAACTCCAAGTTCACCGAGCAACCCTTGAAGCCATACTGCTTCTTTTACAGCCT
44476 CTGTTAATGCCATATACTCTGCTTCTATAGTAGACAGAGCCACTGTTGATTGTAAGGTGGATTTC
326 CTGTTAATGCCATATACTCTGCTTCTATAGTAGACAGAGCCACTGTTGATTGTAAGGTGGATTTC
44541 CAACTAACTGGAGCTTTTGCAAGAGTAAAAATATAACTAGTAGTTGATCGACGCTTGTCTAAATC
391 CAACTAACTGGAGCTTTTGCAAGAGTAAAAATATAACTAGTAGTTGATCGACGCTTGTCTAAATC
44606 ACCAGCATAATCTGAGTCACAAAATCCCTCTACATGCTGACTTTCTTCTTTCTCAAACATTAACC
456 ACCAGCATAATCTGAGTCACAAAATCCCTCTACATGCTGACTTTCTTCTTTCTCAAACATTAACC
44671 CAACATCTATTGTATTATAGATGTATCGAAGAATCCATTTCACAGCTTGCCAATGTTCCTTTCCA
521 CAACATCTATTGTATTATAGATGTATCGAAGAATCCATTTCACAGCTTGCCAATGTTCCTTTCCA
44736 AGATCATGCATGTACCTACTCACAACTCCAACTGCTTGTGAAATATCAGGCCGCGTACACACCAT
586 AGATCATGCATGTACCTACTCACAACTCCAACTGCTTGTGAAATATCAGGCCGCGTACACACCAT
*
44801 TGCATACATCAAGCTCCCAACTACATTAGCATATGGAACTTTTGCCATATTTTCTTGTTCCTCAT
651 TGCATACATCAAGCTCCCAACTACATTAGCATATGGAACTTTTGCCATATTTTCTCGTTCCTCAT
44866 TAGTTTTCAGAGATAATTGAGCACTAAGTTTCAAATGAGAAGCAAGTGG
716 TAGTTTTCAGAGATAATTGAGCACTAAGTTTCAAATGAGAAGCAAGTGG
44915 TGGTGGTGTCATCAATATCGATCTCAACTTCTGACAATATTGACCAAATCCAAACATAGTTGGAA
1 TGGTGGTGTCATCAATATCGATCTCAACTTCTGACAATATTGACCAAATCCAAACATAGTTGGAA
44980 TTTGGTCGCTGTCACAACTTTTATCATCATATCAGCAGGATTCTCAGATGTTCGAATCTTCTAAA
66 TTTGGTCGCTGTCACAACTTTTATCATCATATCAGCAGGATTCTCAGATGTTCGAATCTTCTAAA
45045 TTTCTACTCCACCTTCATTCAGAATTTCTCATACAAAATGATAACGAACGTCGATGTGCTTCGTT
131 TTTCTACTCCACCTTCATTCAGAATTTCTCATACAAAATGATAACGAACGTCGATGTGCTTCGTT
45110 CTTGCATGGTAAACTAGGTTTTTAGCCAATTGAATAGCACTCTGGCTATCACAATGCACAATAAC
196 CTTGCATGGTAAACTAGGTTTTTAGCCAATTGAATAGCACTCTGGCTATCACAATGCACAATAAC
45175 TTACTTTTGTTCAACTCCAAGTTCACCGAGCAACCCTTGAAGCCATACTGCTTCTTTTACAGCCT
261 TTACTTTTGTTCAACTCCAAGTTCACCGAGCAACCCTTGAAGCCATACTGCTTCTTTTACAGCCT
*
45240 CTGTTAATGCCATATACTCTGCTTCTGTAGTAGACAGAGCCACTGTTGATTGTAAGGTGGATTTC
326 CTGTTAATGCCATATACTCTGCTTCTATAGTAGACAGAGCCACTGTTGATTGTAAGGTGGATTTC
45305 CAACTAACTGGAGCTTTTGCAAGAGTAAAAATATAACTAGTAGTTGATCGACGCTTGTCTAAATC
391 CAACTAACTGGAGCTTTTGCAAGAGTAAAAATATAACTAGTAGTTGATCGACGCTTGTCTAAATC
45370 ACCAGCATAATCTGAGTCACAAAATCCCTCTACATGCTGACTTTCTTCTTTCTCAAACATTAACC
456 ACCAGCATAATCTGAGTCACAAAATCCCTCTACATGCTGACTTTCTTCTTTCTCAAACATTAACC
45435 CAACATCTATTGTATTATAGATGTATCGAAGAATCCATTTCACAGCTTGCCAATGTTCCTTTCCA
521 CAACATCTATTGTATTATAGATGTATCGAAGAATCCATTTCACAGCTTGCCAATGTTCCTTTCCA
45500 AGATCATGCATGTACCTACTCACAACTCCAACTGCTTGTGAAATATCAGGCCGCGTACACACCAT
586 AGATCATGCATGTACCTACTCACAACTCCAACTGCTTGTGAAATATCAGGCCGCGTACACACCAT
*
45565 TGCATACATCAAGCTCCCAACTGCATTAGCATATGGAACTTTTGCCATATTTTCTCGTTCCTCAT
651 TGCATACATCAAGCTCCCAACTACATTAGCATATGGAACTTTTGCCATATTTTCTCGTTCCTCAT
*
45630 TAGTTTTCGGAGATAATTGAGCACTAAGTTTCAAATGAGAAGCAAGTGG
716 TAGTTTTCAGAGATAATTGAGCACTAAGTTTCAAATGAGAAGCAAGTGG
45679 GGTACTTACA
Statistics
Matches: 759, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
764 759 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (764 bp):
TGGTGGTGTCATCAATATCGATCTCAACTTCTGACAATATTGACCAAATCCAAACATAGTTGGAA
TTTGGTCGCTGTCACAACTTTTATCATCATATCAGCAGGATTCTCAGATGTTCGAATCTTCTAAA
TTTCTACTCCACCTTCATTCAGAATTTCTCATACAAAATGATAACGAACGTCGATGTGCTTCGTT
CTTGCATGGTAAACTAGGTTTTTAGCCAATTGAATAGCACTCTGGCTATCACAATGCACAATAAC
TTACTTTTGTTCAACTCCAAGTTCACCGAGCAACCCTTGAAGCCATACTGCTTCTTTTACAGCCT
CTGTTAATGCCATATACTCTGCTTCTATAGTAGACAGAGCCACTGTTGATTGTAAGGTGGATTTC
CAACTAACTGGAGCTTTTGCAAGAGTAAAAATATAACTAGTAGTTGATCGACGCTTGTCTAAATC
ACCAGCATAATCTGAGTCACAAAATCCCTCTACATGCTGACTTTCTTCTTTCTCAAACATTAACC
CAACATCTATTGTATTATAGATGTATCGAAGAATCCATTTCACAGCTTGCCAATGTTCCTTTCCA
AGATCATGCATGTACCTACTCACAACTCCAACTGCTTGTGAAATATCAGGCCGCGTACACACCAT
TGCATACATCAAGCTCCCAACTACATTAGCATATGGAACTTTTGCCATATTTTCTCGTTCCTCAT
TAGTTTTCAGAGATAATTGAGCACTAAGTTTCAAATGAGAAGCAAGTGG
Found at i:49369 original size:28 final size:27
Alignment explanation
Indices: 49333--49398 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
49323 AGCCTTCATA
* *
49333 TTTGACAAATATAAAAGAAATCACCATT
1 TTTGACAAACACAAAAGAAAT-ACCATT
* * *
49361 TTTTACAAACACAAAATAACTACCATT
1 TTTGACAAACACAAAAGAAATACCATT
49388 TTTGACAAACA
1 TTTGACAAACA
49399 AATGGGTGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (27 bp):
TTTGACAAACACAAAAGAAATACCATT
Found at i:50167 original size:15 final size:14
Alignment explanation
Indices: 50149--50188 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
50139 ATTGAGAGAA
*
50149 TTTAAATTAAATTAT
1 TTTAAATTAAAAT-T
50164 TTTAAATTTAAAATT
1 TTTAAA-TTAAAATT
50179 TTTAAATTAA
1 TTTAAATTAA
50189 GTTTGTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.57
16 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAAATTAAAATT
Found at i:50958 original size:5 final size:5
Alignment explanation
Indices: 50927--51000 Score: 80
Period size: 5 Copynumber: 14.8 Consensus size: 5
50917 AGCAACGGTC
* * *
50927 AATTT AATTT GA-TA AATTT ATATTT AATTT AATTT ATATTT AATTA AATTT
1 AATTT AATTT AATTT AATTT A-ATTT AATTT AATTT A-ATTT AATTT AATTT
*
50978 AAATT AA-TT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATT
51001 ATTATTTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
4 6 0.10
5 42 0.72
6 10 0.17
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:50977 original size:10 final size:10
Alignment explanation
Indices: 50939--51001 Score: 58
Period size: 11 Copynumber: 6.2 Consensus size: 10
50929 TTTAATTTGA
50939 TAAATTTATAT
1 TAAATTTA-AT
*
50950 TTAATTTAATT
1 TAAATTTAA-T
*
50961 TATATTTAAT
1 TAAATTTAAT
50971 TAAATTTAAAT
1 TAAATTT-AAT
50982 T-AA-TTAAT
1 TAAATTTAAT
*
50990 TTAATTTAAT
1 TAAATTTAAT
51000 TA
1 TA
51002 TTATTTAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 4 0.09
9 4 0.09
10 16 0.37
11 19 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TAAATTTAAT
Found at i:51009 original size:16 final size:15
Alignment explanation
Indices: 50927--51001 Score: 91
Period size: 16 Copynumber: 5.0 Consensus size: 15
50917 AGCAACGGTC
*
50927 AATTTAATTTGA-TA
1 AATTTAATTTAATTA
*
50941 AATTTATATTTAATTT
1 AATTTA-ATTTAATTA
50957 AATTTATATTTAATTA
1 AATTTA-ATTTAATTA
*
50973 AATTTAAATTAATT-
1 AATTTAATTTAATTA
50987 AATTTAATTTAATTA
1 AATTTAATTTAATTA
51002 TTATTTAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
14 19 0.36
15 12 0.23
16 22 0.42
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (15 bp):
AATTTAATTTAATTA
Found at i:51108 original size:39 final size:38
Alignment explanation
Indices: 50985--51120 Score: 93
Period size: 40 Copynumber: 3.3 Consensus size: 38
50975 TTTAAATTAA
50985 TTAATTTAATTTAATTATTA-TTTAAATAATAAAAAATTATATT
1 TTAATTT-A-TTAA-TATTATTTTAAATAATAAAAAA--AT-TT
*
51028 TT-ATTTA--AAT-TTAAATTTTAAATATTAATATACAAATTTT
1 TTAATTTATTAATATT--ATTTTAAATAATAA-A-A-AAA-TTT
51068 TTAATTTATTAATATTATTTTAAATAATAAAATAAATTT
1 TTAATTTATTAATATTATTTTAAATAATAAAA-AAATTT
*
51107 TTATATTAATTAAT
1 TTA-ATTTATTAAT
51121 CCGACTTAAT
Statistics
Matches: 77, Mismatches: 4, Indels: 27
0.71 0.04 0.25
Matches are distributed among these distances:
36 2 0.03
37 1 0.01
38 3 0.04
39 17 0.22
40 19 0.25
41 9 0.12
42 19 0.25
43 5 0.06
44 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (38 bp):
TTAATTTATTAATATTATTTTAAATAATAAAAAAATTT
Found at i:51119 original size:40 final size:42
Alignment explanation
Indices: 51042--51120 Score: 101
Period size: 40 Copynumber: 1.9 Consensus size: 42
51032 TTAAATTTAA
* *
51042 ATTTTAAATATTAATATACAAATTTTTTAATTTATTAATATT
1 ATTTTAAATAATAATATACAAATTTTTTAATTAATTAATATT
*
51084 ATTTTAAATAATAA-A-ATAAA-TTTTTATATTAATTAAT
1 ATTTTAAATAATAATATACAAATTTTTTA-ATTAATTAAT
51121 CCGACTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 6 0.18
40 13 0.39
41 1 0.03
42 13 0.39
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (42 bp):
ATTTTAAATAATAATATACAAATTTTTTAATTAATTAATATT
Found at i:53637 original size:18 final size:18
Alignment explanation
Indices: 53581--53637 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
53571 AATCTATGTT
*
53581 TAAATATAATTATTAATA
1 TAAATTTAATTATTAATA
** *
53599 TTTATTTATTTATTAAATA
1 TAAATTTAATTATT-AATA
*
53618 TAAATTTAATAATTAATA
1 TAAATTTAATTATTAATA
53636 TA
1 TA
53638 TTTTATATTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTTAATTATTAATA
Found at i:53943 original size:3 final size:3
Alignment explanation
Indices: 53937--53970 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
53927 AATTTCTGAT
53937 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53971 AATTAAAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:55076 original size:16 final size:16
Alignment explanation
Indices: 55021--55082 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
55011 TATTAAAATT
*
55021 ATTTTATTTTTATT-TT
1 ATTTTA-TTTTATTATA
*
55037 ATTTTATTTT-TAAATA
1 ATTTTATTTTAT-TATA
*
55053 ATAATTATTTTATTATA
1 AT-TTTATTTTATTATA
55070 ATTTTATTTTATT
1 ATTTTATTTTATT
55083 CTAAAAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
14 1 0.03
15 4 0.11
16 19 0.51
17 12 0.32
18 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTATTTTATTATA
Found at i:55393 original size:17 final size:18
Alignment explanation
Indices: 55371--55405 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
55361 ACAATTAATT
55371 TAAAAA-ATGATATTTAA
1 TAAAAATATGATATTTAA
*
55388 TAAAAATTTGATATTTAA
1 TAAAAATATGATATTTAA
55406 ATCTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
TAAAAATATGATATTTAA
Found at i:58032 original size:18 final size:18
Alignment explanation
Indices: 57999--58034 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57989 TCACGAACAT
**
57999 TTCTCTATATGCTATTAA
1 TTCTCTATATAATATTAA
58017 TTCTCTATATAATATTAA
1 TTCTCTATATAATATTAA
58035 CTTAAAGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (18 bp):
TTCTCTATATAATATTAA
Found at i:61407 original size:19 final size:20
Alignment explanation
Indices: 61370--61407 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61360 ACTTACATTT
61370 AAAAACTATCATTTATTTAA
1 AAAAACTATCATTTATTTAA
*
61390 AAAAACTATGATTT-TTTA
1 AAAAACTATCATTTATTTA
61408 TTGCCACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAAACTATCATTTATTTAA
Found at i:62223 original size:2 final size:2
Alignment explanation
Indices: 62216--62241 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62206 CTCAAGAGGA
62216 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
62242 TAAAGGGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63744 original size:2 final size:2
Alignment explanation
Indices: 63737--63761 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63727 TTTTCACCCC
63737 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
63762 TGTCTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64082 original size:28 final size:27
Alignment explanation
Indices: 64042--64119 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
64032 CCGTATTATT
* *
64042 TTTATATTTTTTTAATA-TTATAATAATA
1 TTTATAATATTTTAATATTTAT-ATAA-A
64070 TTTATAATATTTT-ATATTTATATAAA
1 TTTATAATATTTTAATATTTATATAAA
64096 TTT-TAATATTTTAATAATTTATAT
1 TTTATAATATTTTAAT-ATTTATAT
64120 TATATAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 9 0.20
26 6 0.13
27 15 0.33
28 15 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTATAATATTTTAATATTTATATAAA
Found at i:64104 original size:18 final size:18
Alignment explanation
Indices: 64065--64145 Score: 77
Period size: 16 Copynumber: 4.7 Consensus size: 18
64055 AATATTATAA
*
64065 TAATATTTATA-ATATTT
1 TAATATTTATATAAATTT
64082 T-ATATTTATATAAATTT
1 TAATATTTATATAAATTT
64099 TAATATTT-TA-ATAA-TT
1 TAATATTTATATA-AATTT
64115 T-ATA-TTATATAAATTT
1 TAATATTTATATAAATTT
64131 TAAAATATTTATATA
1 T--AATATTTATATA
64146 TTTGTATACA
Statistics
Matches: 53, Mismatches: 1, Indels: 17
0.75 0.01 0.24
Matches are distributed among these distances:
14 2 0.04
15 7 0.13
16 17 0.32
17 11 0.21
18 6 0.11
19 3 0.06
20 7 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATATTTATATAAATTT
Found at i:64138 original size:34 final size:34
Alignment explanation
Indices: 64065--64143 Score: 117
Period size: 34 Copynumber: 2.3 Consensus size: 34
64055 AATATTATAA
*
64065 TAATATTTATAATATTTTATATTTATATAAATTT
1 TAATATTTATAATAATTTATATTTATATAAATTT
64099 TAATATTT-TAATAATTTATA-TTATATAAATTT
1 TAATATTTATAATAATTTATATTTATATAAATTT
64131 TAAAATATTTATA
1 T--AATATTTATA
64144 TATTTGTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 13 0.32
33 11 0.27
34 15 0.37
35 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
TAATATTTATAATAATTTATATTTATATAAATTT
Found at i:64148 original size:18 final size:18
Alignment explanation
Indices: 64070--64148 Score: 56
Period size: 18 Copynumber: 4.1 Consensus size: 18
64060 TATAATAATA
*
64070 TTTATAATATTT-TATAT
1 TTTAAAATATTTATATAT
64087 TTATATAAAT-TTTA-ATAT
1 TT-TA-AAATATTTATATAT
64105 TTTAATAATTTATATTATATAAAT
1 TTTAA-AA--TAT-TTATAT--AT
64129 TTTAAAATATTTATATAT
1 TTTAAAATATTTATATAT
64147 TT
1 TT
64149 GTATACAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 21
0.69 0.01 0.29
Matches are distributed among these distances:
16 1 0.02
17 6 0.12
18 15 0.30
19 4 0.08
20 7 0.14
21 6 0.12
22 2 0.04
23 2 0.04
24 7 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAAATATTTATATAT
Found at i:64325 original size:2 final size:2
Alignment explanation
Indices: 64306--64339 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
64296 TTCCTCTTCC
* *
64306 AT AT AC AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64340 CATCTAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:64522 original size:18 final size:18
Alignment explanation
Indices: 64499--64539 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
64489 CCTGGGAGGG
*
64499 ATTGGGGTTGGTTTGGGT
1 ATTGGGGTTGGTTTAGGT
64517 ATTGGGGTTGGTTTAGGT
1 ATTGGGGTTGGTTTAGGT
64535 ATTGG
1 ATTGG
64540 TGGAAGTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.46, T:0.44
Consensus pattern (18 bp):
ATTGGGGTTGGTTTAGGT
Found at i:67446 original size:16 final size:16
Alignment explanation
Indices: 67427--67457 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
67417 ATTTAGTTGT
67427 ATATTGATTTATTCAA
1 ATATTGATTTATTCAA
67443 ATATTGATTTATTCA
1 ATATTGATTTATTCA
67458 TTAATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
ATATTGATTTATTCAA
Found at i:69562 original size:25 final size:25
Alignment explanation
Indices: 69533--69580 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
69523 AATATTGTTT
*
69533 AAATTTAGAGAGAA-AAAGTATTAGA
1 AAATTTAGA-AGAATAAAATATTAGA
69558 AAATTTAGAAGAATAAAATATTA
1 AAATTTAGAAGAATAAAATATTA
69581 AATATAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (25 bp):
AAATTTAGAAGAATAAAATATTAGA
Found at i:73126 original size:25 final size:28
Alignment explanation
Indices: 73074--73127 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 28
73064 TAAAAATAAT
73074 TTTTGATAAAAATATTTAAATTAATTAA
1 TTTTGATAAAAATATTTAAATTAATTAA
*
73102 TTTT-ATAAAAA-A-TTAAATTACTTAA
1 TTTTGATAAAAATATTTAAATTAATTAA
73127 T
1 T
73128 GAGCATCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 13 0.52
26 1 0.04
27 7 0.28
28 4 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
TTTTGATAAAAATATTTAAATTAATTAA
Found at i:75361 original size:14 final size:14
Alignment explanation
Indices: 75342--75372 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
75332 CCATATCTCT
*
75342 AAATCTAGTTATTC
1 AAATCTAATTATTC
75356 AAATCTAATTATTC
1 AAATCTAATTATTC
75370 AAA
1 AAA
75373 ATGCTCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (14 bp):
AAATCTAATTATTC
Found at i:81284 original size:17 final size:17
Alignment explanation
Indices: 81252--81283 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
81242 TCTTAACTTT
81252 TCTCTCTTATTTTTTTA
1 TCTCTCTTATTTTTTTA
81269 TCTCTCTT-TTTTTTT
1 TCTCTCTTATTTTTTT
81284 TTATTATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTCTCTTATTTTTTTA
Found at i:86341 original size:16 final size:17
Alignment explanation
Indices: 86310--86343 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
86300 TATTTTTTGT
*
86310 TAAATTATACTTTAATA
1 TAAATAATACTTTAATA
86327 TAAATAATA-TTTAATA
1 TAAATAATACTTTAATA
86343 T
1 T
86344 GACTTTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATAATACTTTAATA
Found at i:86402 original size:35 final size:34
Alignment explanation
Indices: 86363--86468 Score: 122
Period size: 35 Copynumber: 3.0 Consensus size: 34
86353 GTTTTTAGTC
86363 TTTAATATATAGTTTATTATTTAATATAAATATAA
1 TTTAATATATA-TTTATTATTTAATATAAATATAA
* * *
86398 TTTAATAATTTTTAATTATTATTTAACATAAATATAA
1 TTTAAT-A--TATATTTATTATTTAATATAAATATAA
* *
86435 TTTTATTTATATTTTATTATTTAATATAAATATA
1 TTTAATATATA-TTTATTATTTAATATAAATATA
86469 TTTTTAATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
34 3 0.05
35 26 0.44
36 1 0.02
37 26 0.44
38 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (34 bp):
TTTAATATATATTTATTATTTAATATAAATATAA
Found at i:86422 original size:37 final size:35
Alignment explanation
Indices: 86376--86479 Score: 129
Period size: 35 Copynumber: 2.9 Consensus size: 35
86366 AATATATAGT
*
86376 TTATTATTTAATATAAATATAATTTAATAATTTTTA-A
1 TTATTATTTAATATAAATATAATTT--T-ATTTATATA
* *
86413 TTATTATTTAACATAAATATAATTTTATTTATATT
1 TTATTATTTAATATAAATATAATTTTATTTATATA
* *
86448 TTATTATTTAATATAAATATATTTTTAATTAT
1 TTATTATTTAATATAAATATAATTTTATTTAT
86480 TTATCATATA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
34 6 0.10
35 30 0.50
37 24 0.40
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (35 bp):
TTATTATTTAATATAAATATAATTTTATTTATATA
Found at i:86500 original size:29 final size:24
Alignment explanation
Indices: 86446--86501 Score: 58
Period size: 25 Copynumber: 2.1 Consensus size: 24
86436 TTTATTTATA
*
86446 TTTTATTATTTAATATAAATATAT
1 TTTTATTATTTAATATAAAAATAT
86470 TTTTAATTATTTATCATATAAACAATCAT
1 TTTT-ATTATTTA--ATATAAA-AAT-AT
86499 TTT
1 TTT
86502 ATCGAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 4 0.15
25 8 0.31
27 7 0.27
28 2 0.08
29 5 0.19
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTATTATTTAATATAAAAATAT
Found at i:87125 original size:36 final size:38
Alignment explanation
Indices: 87079--87156 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
87069 TATTTTTTAA
*
87079 TTATTATTTAACA-AAA-ATATTGTTTTAA-TATTTATT
1 TTATTATTTAACATAAATATAAT-TTTTAATTATTTATT
*
87115 TTATTATTTAATATAAATATAATTTTTAATTATTTATT
1 TTATTATTTAACATAAATATAATTTTTAATTATTTATT
87153 TTAT
1 TTAT
87157 ATAAACACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 12 0.32
37 9 0.24
38 16 0.43
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (38 bp):
TTATTATTTAACATAAATATAATTTTTAATTATTTATT
Found at i:87126 original size:19 final size:18
Alignment explanation
Indices: 87101--87156 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
87091 AAAAATATTG
87101 TTTTAATATTTATTTTAT
1 TTTTAATATTTATTTTAT
** * *
87119 TATTTAATATAAATATAAT
1 T-TTTAATATTTATTTTAT
87138 TTTTAATTATTTATTTTAT
1 TTTTAA-TATTTATTTTAT
87157 ATAAACACAT
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAATATTTATTTTAT
Found at i:87552 original size:18 final size:17
Alignment explanation
Indices: 87529--87654 Score: 51
Period size: 17 Copynumber: 7.8 Consensus size: 17
87519 CTAATAAATA
87529 ATTAAAATTTATATTTAT
1 ATTAAAA-TTATATTTAT
87547 ATT-AAA-TA-A--TA-
1 ATTAAAATTATATTTAT
87558 ATTAAAAATTATATTTAT
1 ATT-AAAATTATATTTAT
*
87576 ATTAAAA--A-A-AT-T
1 ATTAAAATTATATTTAT
*
87588 ATTAAAATTAT-TTTAG
1 ATTAAAATTATATTTAT
* *
87604 ATTAAAAAATATAATATAT
1 ATT-AAAATTAT-ATTTAT
* ** *
87623 ATTAAAAATGCAGTTAT
1 ATTAAAATTATATTTAT
87640 ATTAAATATTATATT
1 ATTAAA-ATTATATT
87655 AGTTATAAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 32
0.63 0.11 0.26
Matches are distributed among these distances:
11 3 0.04
12 10 0.13
13 4 0.05
14 5 0.06
15 5 0.06
16 3 0.04
17 26 0.33
18 16 0.21
19 6 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTAAAATTATATTTAT
Found at i:87613 original size:27 final size:28
Alignment explanation
Indices: 87501--87614 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
87491 CATTAAAGAT
* * *
87501 ATTAAAA-TGTATGTATATCTAATAAATA
1 ATTAAAATTATATTTATAT-TAAAAAATA
*
87529 ATTAAAATTTATATTTATATTAAATAATA
1 ATTAAAA-TTATATTTATATTAAAAAATA
*
87558 ATTAAAAATTATATTTATATTAAAAAAATT
1 ATT-AAAATTATATTTATATT-AAAAAATA
*
87588 ATTAAAATTAT-TTTAGATTAAAAAATA
1 ATTAAAATTATATTTATATTAAAAAATA
87615 TAATATATAT
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
27 7 0.09
28 14 0.19
29 31 0.42
30 22 0.30
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.43
Consensus pattern (28 bp):
ATTAAAATTATATTTATATTAAAAAATA
Found at i:87831 original size:3 final size:3
Alignment explanation
Indices: 87823--87857 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
87813 TATGGTTCAA
87823 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
87858 GGTTAATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:87902 original size:21 final size:22
Alignment explanation
Indices: 87868--87921 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
87858 GGTTAATTAT
* *
87868 TATAATAGTGAGATAAAAT-AT
1 TATAATAATAAGATAAAATAAT
87889 TATAATAATAAGATTAAAATTAAT
1 TATAATAATAAGA-TAAAA-TAAT
87913 TATAA-AATA
1 TATAATAATA
87922 TGTATTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.39
22 5 0.18
23 5 0.18
24 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
TATAATAATAAGATAAAATAAT
Found at i:88039 original size:42 final size:39
Alignment explanation
Indices: 87967--88058 Score: 91
Period size: 38 Copynumber: 2.3 Consensus size: 39
87957 GAATATGACC
* *
87967 ATTAAGATATTAAATTAAAATATGTATATATATTTAATAAATA
1 ATTAAAATATTAAATTAAAATAT-AAT-TATA-TTAAT-AATA
*
88010 ATTAAAATA-TAAA-TAAAATTATATTTATATTAATAATA
1 ATTAAAATATTAAATTAAAA-TATAATTATATTAATAATA
88048 ATTAAAA-ATTA
1 ATTAAAATATTA
88059 TATTTATGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
37 1 0.02
38 13 0.30
39 5 0.11
40 4 0.09
41 6 0.14
42 7 0.16
43 8 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (39 bp):
ATTAAAATATTAAATTAAAATATAATTATATTAATAATA
Found at i:88055 original size:28 final size:27
Alignment explanation
Indices: 88018--88105 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 27
88008 TAATTAAAAT
*
88018 ATAAATAAAATTATATTTATATTAATA
1 ATAATTAAAATTATATTTATATTAATA
* *
88045 ATAATTAAAAATTATATTTATGTTAAAA
1 ATAATT-AAAATTATATTTATATTAATA
* **
88073 ATTTATTAAAAGCATATTTATATTAAATA
1 A-TAATTAAAATTATATTTATATT-AATA
88102 ATAA
1 ATAA
88106 AATATATTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 5 0.10
28 36 0.73
29 8 0.16
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (27 bp):
ATAATTAAAATTATATTTATATTAATA
Found at i:88159 original size:8 final size:9
Alignment explanation
Indices: 88133--88162 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
88123 AAAAAAAATT
88133 AATTAAATAA
1 AATTAAA-AA
88143 AATTAAAAA
1 AATTAAAAA
88152 AATTAAAAA
1 AATTAAAAA
88161 AA
1 AA
88163 GGGAAAGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATTAAAAA
Found at i:88349 original size:2 final size:2
Alignment explanation
Indices: 88342--88375 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
88332 CCACTACAAC
88342 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88376 AAAGACCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96258 original size:15 final size:16
Alignment explanation
Indices: 96227--96261 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
96217 ATGAGCGTTG
96227 AATATAAATACATATTT
1 AATATAAATA-ATATTT
96244 AATATAAAT-ATATTT
1 AATATAAATAATATTT
96259 AAT
1 AAT
96262 TTTTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
17 9 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATAAATAATATTT
Found at i:96375 original size:2 final size:2
Alignment explanation
Indices: 96368--96407 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
96358 TACATAGTGC
96368 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96408 GCTATAGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101062 original size:17 final size:17
Alignment explanation
Indices: 101040--101093 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
101030 ATATTAAAAT
101040 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
101057 ATTTTATATATTA-AT-A
1 ATTTTATAT-TTATATAA
101073 A-TTTATA-TTATATAA
1 ATTTTATATTTATATAA
101088 ATTTTA
1 ATTTTA
101094 AAATATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.09
14 2 0.06
15 8 0.24
16 6 0.18
17 11 0.33
18 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:101065 original size:24 final size:24
Alignment explanation
Indices: 101038--101151 Score: 61
Period size: 31 Copynumber: 4.3 Consensus size: 24
101028 TTATATTAAA
101038 ATATTTTATATTTATATAAATTTT
1 ATATTTTATATTTATATAAATTTT
101062 ATATATTAATAATTTATATTATATAAATTTT
1 ATAT-TT--T-A--TAT-TTATATAAATTTT
* *
101093 AAAATATTTATATATTTATGTAATATATT
1 ---ATATTT-TATATTTATATAA-ATTTT
* *
101122 ATTTTTTATA-TTATATTATATTTT
1 ATATTTTATATTTATA-TAAATTTT
101146 A-ATTTT
1 ATATTTT
101152 TTTATTATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 25
0.69 0.07 0.24
Matches are distributed among these distances:
23 4 0.06
24 13 0.18
25 8 0.11
26 5 0.07
27 1 0.01
28 8 0.11
29 7 0.10
30 3 0.04
31 14 0.20
32 2 0.03
33 2 0.03
34 4 0.06
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (24 bp):
ATATTTTATATTTATATAAATTTT
Found at i:101078 original size:32 final size:32
Alignment explanation
Indices: 101037--101111 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
101027 ATTATATTAA
* *
101037 AATATTTTATATTTATATAAATTTT-ATATATT
1 AATAATTTATA-TTATATAAATTTTAAAATATT
101069 AATAATTTATATTATATAAATTTTAAAATATT
1 AATAATTTATATTATATAAATTTTAAAATATT
*
101101 TATATATTTAT
1 AATA-ATTTAT
101112 GTAATATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 13 0.34
32 19 0.50
33 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
AATAATTTATATTATATAAATTTTAAAATATT
Found at i:101079 original size:15 final size:14
Alignment explanation
Indices: 101013--101081 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
101003 TATCGTATAT
*
101013 TTTATTATTTTATAA
1 TTTA-TATTTAATAA
* *
101028 -TTATATTAAAATAT
1 TTTATATT-TAATAA
101042 TTTATATTTATATAAA
1 TTTATATTTA-AT-AA
101058 TTTTATATATTAATAA
1 -TTTATAT-TTAATAA
101074 TTTATATT
1 TTTATATT
101082 ATATAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
13 4 0.09
14 8 0.19
15 16 0.37
16 3 0.07
17 9 0.21
18 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTATATTTAATAA
Found at i:101090 original size:15 final size:15
Alignment explanation
Indices: 101042--101091 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
101032 ATTAAAATAT
101042 TTTATATTTATATAAA
1 TTTATA-TTATATAAA
101058 TTT-TA-TATATTAATAA
1 TTTATATTATA-T-A-AA
101074 TTTATATTATATAAA
1 TTTATATTATATAAA
101089 TTT
1 TTT
101092 TAAAATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
13 4 0.14
14 1 0.03
15 8 0.28
16 9 0.31
17 3 0.10
18 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTATATTATATAAA
Found at i:101152 original size:24 final size:25
Alignment explanation
Indices: 101008--101161 Score: 95
Period size: 24 Copynumber: 6.0 Consensus size: 25
100998 TACCATATCG
*
101008 TATATTTTATTATTTTATAATTATAT
1 TATATTTTAATATTTTAT-ATTATAT
* *
101034 TAAAATATTTT-ATA-TTTATATAAATTT
1 T---ATATTTTAATATTTTATAT-TATAT
* *
101061 TATATATTAATAATTTATATTATA-
1 TATATTTTAATATTTTATATTATAT
*
101085 TAAATTTTAAAATATTTATATATT-TAT
1 TATATTTT--AATATTT-TATATTATAT
* *
101112 GTAATATATT-ATTTTTTATATTATAT
1 -T-ATATTTTAATATTTTATATTATAT
*
101138 TATATTTTAAT-TTTTTTATTATAT
1 TATATTTTAATATTTTATATTATAT
101162 AATTATATCG
Statistics
Matches: 100, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
24 30 0.30
25 14 0.14
26 26 0.26
27 15 0.15
28 3 0.03
29 12 0.12
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
TATATTTTAATATTTTATATTATAT
Found at i:103586 original size:23 final size:24
Alignment explanation
Indices: 103560--103613 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 24
103550 TAATATATTA
*
103560 TAAAAATATATAAATATTA-ATAT
1 TAAAAATATATAAAAATTATATAT
*
103583 T-AAAAT-TATAAAAATTATTTAT
1 TAAAAATATATAAAAATTATATAT
*
103605 TATAAATAT
1 TAAAAATAT
103614 TTTTATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 5 0.20
24 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAAAATATATAAAAATTATATAT
Found at i:103594 original size:31 final size:31
Alignment explanation
Indices: 103556--103643 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
103546 GATTTAATAT
103556 ATTATAAAAATATATAAATATTAATATTAAA
1 ATTATAAAAATATATAAATATTAATATTAAA
* * * ***
103587 ATTATAAAAAT-TATTTATTATAAATATTTTT
1 ATTATAAAAATATA-TAAATATTAATATTAAA
103618 ATTATAAAAATATATAAA-A-TAATATT
1 ATTATAAAAATATATAAATATTAATATT
103644 TTTATATTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
29 6 0.13
30 3 0.07
31 35 0.76
32 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
ATTATAAAAATATATAAATATTAATATTAAA
Found at i:103618 original size:15 final size:16
Alignment explanation
Indices: 103587--103628 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
103577 TAATATTAAA
103587 ATTATAAAAATTATTT
1 ATTATAAAAATTATTT
*
103603 ATTATAAATATT-TTT
1 ATTATAAAAATTATTT
103618 ATTATAAAAAT
1 ATTATAAAAAT
103629 ATATAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATAAAAATTATTT
Found at i:103661 original size:36 final size:38
Alignment explanation
Indices: 103614--103686 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
103604 TTATAAATAT
* *
103614 TTTTATTATAAAA-ATATAT-AAAATAATATTTTTATA
1 TTTTATAATAAAATATAAATAAAAATAATATTTTTATA
* *
103650 TTTTATAATAAAATTTAAATAAAAATATTATTTTTAT
1 TTTTATAATAAAATATAAATAAAAATAATATTTTTAT
103687 TATTAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 12 0.39
37 4 0.13
38 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
TTTTATAATAAAATATAAATAAAAATAATATTTTTATA
Found at i:103677 original size:35 final size:36
Alignment explanation
Indices: 103638--103705 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
103628 TATATAAAAT
*
103638 AATATT-TTTATATTTTATAATAA-AATTTAAATAAA
1 AATATTATTTATATTAT-TAATAATAATTTAAATAAA
*
103673 AATATTATTTTTATTATTAATAATAATTTAAAT
1 AATATTATTTATATTATTAATAATAATTTAAAT
103706 CAAATCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 12 0.41
36 17 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
AATATTATTTATATTATTAATAATAATTTAAATAAA
Found at i:103696 original size:38 final size:36
Alignment explanation
Indices: 103633--103705 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
103623 AAAAATATAT
*
103633 AAAATAATATTTTTATATTTTATAATAAAATTTAAATA
1 AAAATAATATTTTTATATTTAATAAT--AATTTAAATA
*
103671 AAAATATTATTTTTAT-TATTAATAATAATTTAAAT
1 AAAATAATATTTTTATAT-TTAATAATAATTTAAAT
103706 CAAATCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 9 0.28
37 1 0.03
38 22 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATAATATTTTTATATTTAATAATAATTTAAATA
Found at i:104589 original size:2 final size:2
Alignment explanation
Indices: 104582--104614 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
104572 TACCAAGATA
104582 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104615 TCCATGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107617 original size:16 final size:16
Alignment explanation
Indices: 107598--107707 Score: 59
Period size: 15 Copynumber: 6.4 Consensus size: 16
107588 AATTAAAATA
107598 AAATATAAAA-TATTAT
1 AAATATAAAATTA-TAT
107614 AAATA-AAAATTATAT
1 AAATATAAAATTATAT
* *
107629 AAATATAATAA-AAAATT
1 AAATATAA-AATTATA-T
107646 AAATTATATTAAGATTTATAT
1 AAA-TATA--AA-A-TTATAT
107667 AAATAT-AAATTAT-T
1 AAATATAAAATTATAT
107681 AATATATAAAAAATTATAAT
1 AA-ATAT--AAAATTAT-AT
107701 AAATATA
1 AAATATA
107708 TAATATTTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 31
0.68 0.04 0.28
Matches are distributed among these distances:
14 3 0.04
15 20 0.27
16 12 0.16
17 9 0.12
18 11 0.15
19 5 0.07
20 8 0.11
21 4 0.05
22 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (16 bp):
AAATATAAAATTATAT
Found at i:107640 original size:20 final size:20
Alignment explanation
Indices: 107615--107674 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
107605 AAATATTATA
107615 AATAAAAATTATATAAATAT
1 AATAAAAATTATATAAATAT
107635 AATAAAAA--AT-TAAATTAT
1 AATAAAAATTATATAAA-TAT
* * *
107653 ATTAAGATTTATATAAATAT
1 AATAAAAATTATATAAATAT
107673 AA
1 AA
107675 ATTATTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 4 0.12
18 10 0.31
20 14 0.44
21 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AATAAAAATTATATAAATAT
Found at i:107730 original size:74 final size:68
Alignment explanation
Indices: 107594--107744 Score: 160
Period size: 71 Copynumber: 2.1 Consensus size: 68
107584 AAATAATTAA
*
107594 AATAAAATATAAAATATTATAAATAAAAATTATATAAATATAATAAAAAATTAAATTATATTAAG
1 AATAAAATATAAAATATTATAAATAAAAATTATATAAATATAATAAAAAATTAAATTATATTAAA
107659 ATT
66 ATT
* * * * ** *
107662 TATATAAATATAAATTATTAATATATAAAAAATTATAATAAATAT-ATAATATTTTTAATCTAAT
1 AATA-AAATATAAAATATT-ATAAAT-AAAAATTAT-ATAAATATAATAAAAAATTAAAT-T-A-
107726 TATTAAAATT
59 TATTAAAATT
107736 AATAAAATA
1 AATAAAATA
107745 ATATTAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
68 3 0.04
69 13 0.19
70 5 0.07
71 19 0.28
72 9 0.13
73 6 0.09
74 12 0.18
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (68 bp):
AATAAAATATAAAATATTATAAATAAAAATTATATAAATATAATAAAAAATTAAATTATATTAAA
ATT
Found at i:108075 original size:26 final size:27
Alignment explanation
Indices: 108039--108094 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
108029 TATGATATTT
* *
108039 TTAAT-ATT-TATAAATTTTTAATTAGA
1 TTAATAATTATATAAA-TTTAAATTAAA
108065 TTAATAATTATATAAATTTAAATTAAA
1 TTAATAATTATATAAATTTAAATTAAA
108092 TTA
1 TTA
108095 TATTAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.19
27 15 0.58
28 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TTAATAATTATATAAATTTAAATTAAA
Found at i:108129 original size:18 final size:18
Alignment explanation
Indices: 108091--108142 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
108081 TTTAAATTAA
* *
108091 ATTATATTAAATAATTATT
1 ATTAT-TTAAATATTTTTT
108110 ATTATTTAAATATTTTTT
1 ATTATTTAAATATTTTTT
*
108128 ATAATTTAAA-ATTTT
1 ATTATTTAAATATTTT
108143 ATATAAGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 5 0.17
18 20 0.67
19 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTATTTAAATATTTTTT
Found at i:108147 original size:17 final size:18
Alignment explanation
Indices: 108113--108148 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
108103 AATTATTATT
*
108113 ATTTAAATATTTTTTATA
1 ATTTAAATATTTTATATA
108131 ATTTAAA-ATTTTATATA
1 ATTTAAATATTTTATATA
108148 A
1 A
108149 GTAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTAAATATTTTATATA
Found at i:108210 original size:16 final size:17
Alignment explanation
Indices: 108191--108225 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
108181 TAAATTATAA
108191 AAATATAAAATAAA-AT
1 AAATATAAAATAAATAT
*
108207 AAATATAATATAAATAT
1 AAATATAAAATAAATAT
108224 AA
1 AA
108226 TTTGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATATAAAATAAATAT
Found at i:108219 original size:11 final size:11
Alignment explanation
Indices: 108192--108283 Score: 55
Period size: 11 Copynumber: 8.1 Consensus size: 11
108182 AAATTATAAA
108192 AATATAAA-AT
1 AATATAAATAT
*
108202 AAAATAAATAT
1 AATATAAATAT
108213 AATATAAATAT
1 AATATAAATAT
* *
108224 AATTTGAAAAAT
1 AATAT-AAATAT
*
108236 GAT-TAAA-ACGT
1 AATATAAATA--T
*
108247 AACGTTATAAAAAT
1 AA---TATAAATAT
108261 AATATAAATAT
1 AATATAAATAT
*
108272 GATATAAATAT
1 AATATAAATAT
108283 A
1 A
108284 CAAATATATT
Statistics
Matches: 64, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
9 1 0.02
10 10 0.16
11 37 0.58
12 7 0.11
14 4 0.06
15 4 0.06
16 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (11 bp):
AATATAAATAT
Found at i:108907 original size:11 final size:11
Alignment explanation
Indices: 108862--108913 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
108852 AAATTGAAAC
* *
108862 ATAATATGAAC
1 ATAATATAAAA
108873 ATAATATAAATA
1 ATAATATAAA-A
*
108885 A-AAAATTAAAA
1 ATAATA-TAAAA
108896 ATAATATAAAA
1 ATAATATAAAA
108907 ATAATAT
1 ATAATAT
108914 GAGCACGACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:109166 original size:34 final size:34
Alignment explanation
Indices: 109100--109166 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
109090 TTATAATTAT
* *
109100 TATATAAATTTATAATATTTTTAGTAATATAAAA
1 TATATAAATATATAATATTTTTAGTAAAATAAAA
*
109134 TATATAAATATATAAT-TTTTTATTAAAAATAAA
1 TATATAAATATATAATATTTTTAGT-AAAATAAA
109167 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (34 bp):
TATATAAATATATAATATTTTTAGTAAAATAAAA
Found at i:109580 original size:22 final size:21
Alignment explanation
Indices: 109553--109658 Score: 81
Period size: 22 Copynumber: 4.8 Consensus size: 21
109543 AATTAGAGTA
109553 TTAAATTTAATTAATTT-AATT
1 TTAAA-TTAATTAATTTAAATT
*
109574 TTAAAATAATTAAAATTTAAGATAAT
1 TTAAATTAATT--AATTTAA-AT--T
* *
109600 TTAAATATGATTAATTTAAATA
1 TTAAAT-TAATTAATTTAAATT
*
109622 TTAAATTTGATTAATTTAAA-T
1 TTAAA-TTAATTAATTTAAATT
*
109643 TTAAAATAATTAATTT
1 TTAAATTAATTAATTT
109659 GAACTTAAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
20 14 0.20
21 10 0.14
22 23 0.33
23 2 0.03
24 4 0.06
25 7 0.10
26 6 0.09
27 4 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
TTAAATTAATTAATTTAAATT
Found at i:109640 original size:15 final size:16
Alignment explanation
Indices: 109553--109628 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
109543 AATTAGAGTA
109553 TTAAATTT-AATTAAT
1 TTAAATTTAAATTAAT
* *
109568 TTAATTTTAAAATAAT
1 TTAAATTTAAATTAAT
*
109584 TAAAATTTAAGA-TAAT
1 TTAAATTTAA-ATTAAT
* *
109600 TTAAATAT-GATTAAT
1 TTAAATTTAAATTAAT
109615 TTAAATATTAAATT
1 TTAAAT-TTAAATT
109629 TGATTAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
14 1 0.02
15 17 0.36
16 25 0.53
17 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTAAATTTAAATTAAT
Found at i:109655 original size:15 final size:14
Alignment explanation
Indices: 109552--109655 Score: 58
Period size: 15 Copynumber: 7.4 Consensus size: 14
109542 TAATTAGAGT
*
109552 ATTAAATTTAATTA
1 ATTAAATTTAAATA
*
109566 ATTTAATTTTAAAATA
1 A-TTAAATTT-AAATA
109582 ATTAAAATTTAAGATA
1 ATT-AAATTTAA-ATA
*
109598 ATTTAAA--T--ATG
1 A-TTAAATTTAAATA
109609 ATT-AATTTAAAT-
1 ATTAAATTTAAATA
* *
109621 ATTAAATTTGATTA
1 ATTAAATTTAAATA
109635 ATTTAAATTTAAAATA
1 A-TTAAATTT-AAATA
109651 ATTAA
1 ATTAA
109656 TTTGAACTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 25
0.68 0.08 0.25
Matches are distributed among these distances:
9 2 0.03
10 2 0.03
11 4 0.06
12 3 0.04
13 9 0.13
14 3 0.04
15 23 0.33
16 21 0.30
17 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
ATTAAATTTAAATA
Found at i:109666 original size:20 final size:20
Alignment explanation
Indices: 109631--109672 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
109621 ATTAAATTTG
*
109631 ATTAATTTAAATTTAAAATA
1 ATTAATTTAAACTTAAAATA
* *
109651 ATTAATTTGAACTTAAAGTA
1 ATTAATTTAAACTTAAAATA
109671 AT
1 AT
109673 AAAAATCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (20 bp):
ATTAATTTAAACTTAAAATA
Found at i:109715 original size:18 final size:17
Alignment explanation
Indices: 109680--109727 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
109670 AATAAAAATC
*
109680 AAAATAATTTATATTTA
1 AAAATAATTTAAATTTA
109697 AAAATAATTTAAAATTTA
1 AAAATAATTT-AAATTTA
*
109715 AAAA-ATTTTAAAT
1 AAAATAATTTAAAT
109728 AATTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 4 0.14
17 14 0.50
18 10 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATAATTTAAATTTA
Found at i:110199 original size:17 final size:16
Alignment explanation
Indices: 110177--110237 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
110167 ATTTTAAATT
110177 TTTAAAAATTAAATAAA
1 TTTAAAAATT-AATAAA
*
110194 TTTAAAAAATTGATAAA
1 TTT-AAAAATTAATAAA
* *
110211 ATTAATCAATTAA-AAA
1 TTTAA-AAATTAATAAA
110227 TTT-AAAATTAA
1 TTTAAAAATTAA
110238 ATTTAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
16 7 0.19
17 15 0.42
18 7 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
TTTAAAAATTAATAAA
Done.